Variant report

Variant	rs13079195
Chromosome Location	chr3:19031322-19031323
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:18889346..18892141-chr3:19030390..19031987,2	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1449942	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1579992	0.94[AMR][1000 genomes]
rs28532618	0.82[AMR][1000 genomes]
rs28828139	0.86[AMR][1000 genomes]
rs4246663	0.88[EUR][1000 genomes]
rs4408886	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4491922	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4493455	0.88[EUR][1000 genomes]
rs4510398	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4973720	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55832040	0.94[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6550856	0.87[EUR][1000 genomes]
rs6550868	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6550872	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6550873	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6550888	0.82[EUR][1000 genomes]
rs6550937	0.88[AMR][1000 genomes]
rs6800676	0.84[AMR][1000 genomes]
rs6802959	0.84[AMR][1000 genomes]
rs6807205	0.88[EUR][1000 genomes]
rs73048510	0.86[AMR][1000 genomes]
rs7373868	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7374105	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7374279	0.88[EUR][1000 genomes]
rs7374571	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7426697	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7428855	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7428897	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7430996	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7433155	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7433351	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7612947	0.96[AMR][1000 genomes]
rs7633015	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9820260	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9823816	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9831536	0.86[AMR][1000 genomes]
rs9832959	0.84[AMR][1000 genomes]
rs9836382	0.96[AMR][1000 genomes]
rs9837132	0.82[AMR][1000 genomes]
rs9863039	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9863583	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv517847	chr3:18845347-19483695	Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1010123	chr3:18990307-19989504	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:19025400-19032200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr3:19028400-19034400	Weak transcription	Brain Germinal Matrix	brain
3	chr3:19029600-19031800	Flanking Active TSS	Primary T cells from cord blood	blood
4	chr3:19030200-19032200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr3:19030400-19033600	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr3:19030600-19031800	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr3:19030600-19032200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr3:19030600-19032200	Enhancers	Fetal Thymus	thymus
9	chr3:19030800-19034800	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr3:19031000-19031400	Active TSS	Primary T cells fromperipheralblood	blood
11	chr3:19031000-19031400	Active TSS	Primary T helper naive cells from peripheral blood	blood
12	chr3:19031000-19031800	Enhancers	Thymus	Thymus
13	chr3:19031200-19031400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr3:19031200-19031400	Active TSS	Primary T helper naive cells fromperipheralblood	blood
15	chr3:19031200-19031400	Bivalent/Poised TSS	Primary T helper cells PMA-I stimulated	--
16	chr3:19031200-19031400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
17	chr3:19031200-19031600	Active TSS	Duodenum Mucosa	Duodenum
18	chr3:19031200-19034400	Enhancers	iPS-20b Cell Line	embryonic stem cell

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